Plant Circular RNA Database

Detail information of orai.012G010000_circ_g.2

			
						 General Information
					
						CircRNA Name
						orai.012G010000_circ_g.2
					
						ID in PlantcircBase
						gra_circ_001290
					
						Alias
						Chr12:1105973|1107125
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr12: 1105973-1107125  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.012G010000						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.012G010000_circ_g.1 						
					
						Support reads
						9
					
						Tissues
						ovule
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Gorai.012G010000.2:3
Gorai.012G010000.1:3

General Information
CircRNA Name	orai.012G010000_circ_g.2
ID in PlantcircBase	gra_circ_001290
Alias	Chr12:1105973\|1107125
Organism	Gossypium raimondii
Position	chrChr12: 1105973-1107125 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.012G010000
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.012G010000_circ_g.1
Support reads	9
Tissues	ovule
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Gorai.012G010000.2:3 Gorai.012G010000.1:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							CGTGGTGCATCCTGGGAACCTTTGATGAGATGGATCCCAACCCTTCGGATGAGCTCCTCCATAG
CCTCCACTTCTTCTTCGTCTTATCTCCCACCTTCTCctgttttaagacagagtatgctactgct
ctctccctcttgattgcaccttgttgtctcatttgttgtttagctcttagttcctctaaagttc
ccagactg

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 579
Transcript exons: 1105973-1106086,1106174-1106383,1106871-1107125
CTGTTTTAAGACAGAGTATGCTACTGCTCTCTCCCTCTTGATTGCACCTTGTTGTCTCATTTGT
TGTTTAGCTCTTAGTTCCTCTAAAGTTCCCAGACTGTCGCACCATCCTCGCTCAGCTTGTTTTG
CTGGATCTTCATCCATTAGTTTGGGCATAGCTTGTCCTTCAGAAGATGTCACACATTGTGCTCT
TACTCGAGCTTGGACTCTGACAAGAGCTTGCATACACCTTAATGTCACAGCAGCTTGCTTTCGG
ACTTGACGACCCCGGAATATAGCTTGAATCCTCACTACTGCTTTCAACGCCCTTAGAGCTCGTC
TTGCCAGCAAGGCTCGAAATGCGGTCTGGATTCGAATGGCGGCCCATTCCCGCTTAACAGCTCT
GAAATCTTTGGGTGGAGCACGAGCAACAGTAGCCATAGCTGAAGCGAGCACATCATCCACCAAC
AAAGATGAATCAGAGGCCTCTGAAGCAGCCACGTGGTGCATCCTGGGAACCTTTGATGAGATGG
ATCCCAACCCTTCGGATGAGCTCCTCCATAGCCTCCACTTCTTCTTCGTCTTATCTCCCACCTT
CTC
						
					

						Genomic sequence
						
							CTGTTTTAAGACAGAGTATGCTACTGCTCTCTCCCTCTTGATTGCACCTTGTTGTCTCATTTGT
TGTTTAGCTCTTAGTTCCTCTAAAGTTCCCAGACTGTCGCACCATCCTCGCTGAAAATAGTTTA
AAAGATATAAACAAATGGTATCAGCTTATCATATAGGCACGAGTATAATTGTGTATGGATTATG
TATAACCACCTCAGCTTGTTTTGCTGGATCTTCATCCATTAGTTTGGGCATAGCTTGTCCTTCA
GAAGATGTCACACATTGTGCTCTTACTCGAGCTTGGACTCTGACAAGAGCTTGCATACACCTTA
ATGTCACAGCAGCTTGCTTTCGGACTTGACGACCCCGGAATATAGCTTGAATCCTCACTACTGC
TTTCAACGCCCTTAGAGCTCGTCTTGCCTGCCAGCATTCATTTCCTTGTGAAAAGGGAAGGCAC
TTAAAAGAATATGAACAATTTTTTACCAATTTGTACTTGTTATCCATGGCCAATTACTGAAAGG
TTAATTCAATTCTTCATAAAAGACTGTTCACAACTCAATTTACAATAAGGCGTGCTTTTGCAGA
AAGAAATTTTGCAGTATCAAAATCAAATCAAGTTTCATTCATATCTCACAGGACAGACCTCCAT
TAAAGAAAATGCAAAACCACTTGGATCAGAGAAACGAAAAAGAAAAGAGAAGAAAATGGTACTT
CAATTCCTACAAAGGTTTATACTTAATTACCATTTTCTCTTACCATATATCTCTCCATGGGCTT
GTAAATTACTAAATGGCAATTCATTGCAATTGACCCCAAAACTTGGAACAAAAACAACATAATT
TTGGAGCTTTTAGTCTTCCAAATGACAATTCATTGTCTATAGTGCAAGCAAAGTAAGAAGCTAT
ACCAGCAAGGCTCGAAATGCGGTCTGGATTCGAATGGCGGCCCATTCCCGCTTAACAGCTCTGA
AATCTTTGGGTGGAGCACGAGCAACAGTAGCCATAGCTGAAGCGAGCACATCATCCACCAACAA
AGATGAATCAGAGGCCTCTGAAGCAGCCACGTGGTGCATCCTGGGAACCTTTGATGAGATGGAT
CCCAACCCTTCGGATGAGCTCCTCCATAGCCTCCACTTCTTCTTCGTCTTATCTCCCACCTTCT
C
						
					

			
		

Sequences
Splice junction sequence	CGTGGTGCATCCTGGGAACCTTTGATGAGATGGATCCCAACCCTTCGGATGAGCTCCTCCATAG CCTCCACTTCTTCTTCGTCTTATCTCCCACCTTCTCctgttttaagacagagtatgctactgct ctctccctcttgattgcaccttgttgtctcatttgttgtttagctcttagttcctctaaagttc ccagactg
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 579 Transcript exons: 1105973-1106086,1106174-1106383,1106871-1107125 CTGTTTTAAGACAGAGTATGCTACTGCTCTCTCCCTCTTGATTGCACCTTGTTGTCTCATTTGT TGTTTAGCTCTTAGTTCCTCTAAAGTTCCCAGACTGTCGCACCATCCTCGCTCAGCTTGTTTTG CTGGATCTTCATCCATTAGTTTGGGCATAGCTTGTCCTTCAGAAGATGTCACACATTGTGCTCT TACTCGAGCTTGGACTCTGACAAGAGCTTGCATACACCTTAATGTCACAGCAGCTTGCTTTCGG ACTTGACGACCCCGGAATATAGCTTGAATCCTCACTACTGCTTTCAACGCCCTTAGAGCTCGTC TTGCCAGCAAGGCTCGAAATGCGGTCTGGATTCGAATGGCGGCCCATTCCCGCTTAACAGCTCT GAAATCTTTGGGTGGAGCACGAGCAACAGTAGCCATAGCTGAAGCGAGCACATCATCCACCAAC AAAGATGAATCAGAGGCCTCTGAAGCAGCCACGTGGTGCATCCTGGGAACCTTTGATGAGATGG ATCCCAACCCTTCGGATGAGCTCCTCCATAGCCTCCACTTCTTCTTCGTCTTATCTCCCACCTT CTC
Genomic sequence	CTGTTTTAAGACAGAGTATGCTACTGCTCTCTCCCTCTTGATTGCACCTTGTTGTCTCATTTGT TGTTTAGCTCTTAGTTCCTCTAAAGTTCCCAGACTGTCGCACCATCCTCGCTGAAAATAGTTTA AAAGATATAAACAAATGGTATCAGCTTATCATATAGGCACGAGTATAATTGTGTATGGATTATG TATAACCACCTCAGCTTGTTTTGCTGGATCTTCATCCATTAGTTTGGGCATAGCTTGTCCTTCA GAAGATGTCACACATTGTGCTCTTACTCGAGCTTGGACTCTGACAAGAGCTTGCATACACCTTA ATGTCACAGCAGCTTGCTTTCGGACTTGACGACCCCGGAATATAGCTTGAATCCTCACTACTGC TTTCAACGCCCTTAGAGCTCGTCTTGCCTGCCAGCATTCATTTCCTTGTGAAAAGGGAAGGCAC TTAAAAGAATATGAACAATTTTTTACCAATTTGTACTTGTTATCCATGGCCAATTACTGAAAGG TTAATTCAATTCTTCATAAAAGACTGTTCACAACTCAATTTACAATAAGGCGTGCTTTTGCAGA AAGAAATTTTGCAGTATCAAAATCAAATCAAGTTTCATTCATATCTCACAGGACAGACCTCCAT TAAAGAAAATGCAAAACCACTTGGATCAGAGAAACGAAAAAGAAAAGAGAAGAAAATGGTACTT CAATTCCTACAAAGGTTTATACTTAATTACCATTTTCTCTTACCATATATCTCTCCATGGGCTT GTAAATTACTAAATGGCAATTCATTGCAATTGACCCCAAAACTTGGAACAAAAACAACATAATT TTGGAGCTTTTAGTCTTCCAAATGACAATTCATTGTCTATAGTGCAAGCAAAGTAAGAAGCTAT ACCAGCAAGGCTCGAAATGCGGTCTGGATTCGAATGGCGGCCCATTCCCGCTTAACAGCTCTGA AATCTTTGGGTGGAGCACGAGCAACAGTAGCCATAGCTGAAGCGAGCACATCATCCACCAACAA AGATGAATCAGAGGCCTCTGAAGCAGCCACGTGGTGCATCCTGGGAACCTTTGATGAGATGGAT CCCAACCCTTCGGATGAGCTCCTCCATAGCCTCCACTTCTTCTTCGTCTTATCTCCCACCTTCT C

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.541644189

Conservation Information
Conserved circRNAs	NA
PMCS	0.541644189

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1107036-1105975(-)
1106902-1106318(+)
1106999-1106010(+)
						
						Potential amino acid sequence
						
							MHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALRALK
AVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAERGW
CDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQEKVGDKTKKKWRLWRSSSEGLGSISSKVP
RMHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALRAL
KAVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAERG
WCDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQEKVGDKTKKKWRLWRSSSEGLGSISSKV
PRMHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALRA
LKAVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAER
GWCDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQEKVGDKTKKKWRLWRSSSEGLGSISSK
VPRMHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALR
ALKAVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAE
RGWCDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQ(-)
MAAHSRLTALKSLGGARATVAIAEASTSSTNKDESEASEAATWCILGTFDEMDPNPSDELLHSL
HFFFVLSPTFSCFKTEYATALSLLIAPCCLICCLALSSSKVPRLSHHPRSACFAGSSSISLGIA
CPSEDVTHCALTRAWTLTRACIHLNVTAACFRT*(+)
MNQRPLKQPRGASWEPLMRWIPTLRMSSSIASTSSSSYLPPSPVLRQSMLLLSPS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1107036-1105975(-) 1106902-1106318(+) 1106999-1106010(+)
Potential amino acid sequence	MHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALRALK AVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAERGW CDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQEKVGDKTKKKWRLWRSSSEGLGSISSKVP RMHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALRAL KAVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAERG WCDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQEKVGDKTKKKWRLWRSSSEGLGSISSKV PRMHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALRA LKAVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAER GWCDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQEKVGDKTKKKWRLWRSSSEGLGSISSK VPRMHHVAASEASDSSLLVDDVLASAMATVARAPPKDFRAVKREWAAIRIQTAFRALLARRALR ALKAVVRIQAIFRGRQVRKQAAVTLRCMQALVRVQARVRAQCVTSSEGQAMPKLMDEDPAKQAE RGWCDSLGTLEELRAKQQMRQQGAIKRERAVAYSVLKQ(-) MAAHSRLTALKSLGGARATVAIAEASTSSTNKDESEASEAATWCILGTFDEMDPNPSDELLHSL HFFFVLSPTFSCFKTEYATALSLLIAPCCLICCLALSSSKVPRLSHHPRSACFAGSSSISLGIA CPSEDVTHCALTRAWTLTRACIHLNVTAACFRT(+) MNQRPLKQPRGASWEPLMRWIPTLRMSSSIASTSSSSYLPPSPVLRQSMLLLSPS(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.012G010000_circ_g.2

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